Dear Nick, I was wondering whether you (or indeed anyone else reading this!) know where the error that I report earlier in this thread might be coming from. Many thanks in advance!
Tudor On 20 December 2012 05:27, Douglas Greve <gr...@nmr.mgh.harvard.edu> wrote: > Hi Tudor, I don't know how to solve this problem. Maybe Nick knows. > doug > > > On 12/19/12 6:59 AM, Tudor Popescu wrote: > > Hi Doug, thanks for replying, here is the file attached. In case the > attachment doesn't go through please let me know if I should send it to a > different address. > Tudor > > On 18 December 2012 17:34, Douglas N Greve <gr...@nmr.mgh.harvard.edu>wrote: > >> >> Can you send the recon-all.log file (located in the subject/scripts >> folder). >> doug >> >> >> On 12/18/2012 11:41 AM, Tudor Popescu wrote: >> > Hello, >> > >> > First of all, apologies for asking for help three times today! THings >> > will hopefully become clearer once I get used to FS a bit; I really do >> > appreciate the amazing support provided by the team behind FreeSurfer! >> > >> > I ran the following command on one of my structurals: >> > >> > /recon-all -subject M01 -i M01.nii.gz -all/ >> > >> > After a few minutes, recon-all ended with the following message: >> > >> > /Assertion failed at line 827 in file templates/CachedArray.cc/ >> > /nu_estimate_np_and_em: crashed while running volume_stats >> > (termination status=256)/ >> > /nu_correct: crashed while running nu_estimate_np_and_em (termination >> > status=256)/ >> > /ERROR: nu_correct/ >> > /Linux FreeSurfer 2.6.28-11-generic #42-Ubuntu SMP Fri Apr 17 01:57:59 >> > UTC 2009 i686 GNU/Linux/ >> > >> > I apologise for reporting an error that's already been reported in the >> > past, but unfortunately the solutions suggested in those past threads >> > did not work in my case. To address a few of them: >> > >> > * my PATH (listed below) does not seem to include two MNI >> installations >> > >> //home/virtualuser/freesurfer/bin:/home/virtualuser/freesurfer/fsfast/bin:/home/virtualuser/freesurfer/tktools:/home/virtualuser/freesurfer/mni/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games/ >> > * the version of FreeSurfer that I installed is the latest disk >> > image available on the website >> > (freesurfer-Virtualbox-linux-x86-stable-pub-v5.1.0-full) - I did >> > not see any dev version that would presumably include any missing >> > libraries presumably implied by the above error >> > * I tried updating the Xubuntu inside my VirtualBox, however it >> > reports an insufficient space problem that from I can see does not >> > have a trivial fix >> > >> > Advance thanks for any help! >> > Tudor >> > >> > >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> The information in this e-mail is intended only for the person to whom it >> is >> addressed. If you believe this e-mail was sent to you in error and the >> e-mail >> contains patient information, please contact the Partners Compliance >> HelpLine at >> http://www.partners.org/complianceline . If the e-mail was sent to you >> in error >> but does not contain patient information, please contact the sender and >> properly >> dispose of the e-mail. >> >> > >
recon-all.log
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_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
